Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004782.1 Hibiscus syriacus cultivar Beakdansim tig00010784_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 69633
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Found at i:734 original size:20 final size:20
Alignment explanation
Indices: 709--758 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
699 GACCAACAAA
709 TTCGCAACGCAAACTCCAAT
1 TTCGCAACGCAAACTCCAAT
* **
729 TTCGCAACCCAATTTCCAAT
1 TTCGCAACGCAAACTCCAAT
749 TTCGCAACGC
1 TTCGCAACGC
759 GAATATGTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.30, C:0.36, G:0.10, T:0.24
Consensus pattern (20 bp):
TTCGCAACGCAAACTCCAAT
Found at i:854 original size:40 final size:40
Alignment explanation
Indices: 810--998 Score: 188
Period size: 40 Copynumber: 4.7 Consensus size: 40
800 GATTTTCCAG
* *
810 ATTCGCAACGCGAATCTGT-AAA-TCGCAACACATAAGTCAA
1 ATTCGCAACGCG-AT-AGTCAAATTCGCAACACAAAAGTCAA
*
850 ATTCGTAACGCGATAGTCAAATTCGCAACACAAAAGTCAA
1 ATTCGCAACGCGATAGTCAAATTCGCAACACAAAAGTCAA
* * ** * *
890 TTTCGCAACGCGAATTTGT-AAA-TCATAACACAGAATTCAA
1 ATTCGCAACGCG-A-TAGTCAAATTCGCAACACAAAAGTCAA
* *
930 ATTCGCAACGCGATAGTCAAATTTGCAACAGAAAAGTCAA
1 ATTCGCAACGCGATAGTCAAATTCGCAACACAAAAGTCAA
* * *
970 ATTCGCAACACAAAAGTCAAATTCGCAAC
1 ATTCGCAACGCGATAGTCAAATTCGCAAC
999 GCGATAGCCA
Statistics
Matches: 121, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
38 5 0.04
39 9 0.07
40 100 0.83
41 4 0.03
42 3 0.02
ACGTcount: A:0.42, C:0.23, G:0.14, T:0.21
Consensus pattern (40 bp):
ATTCGCAACGCGATAGTCAAATTCGCAACACAAAAGTCAA
Found at i:869 original size:20 final size:20
Alignment explanation
Indices: 843--1063 Score: 148
Period size: 20 Copynumber: 11.1 Consensus size: 20
833 CGCAACACAT
*
843 AAGTCAAATTCGTAACGCGA
1 AAGTCAAATTCGCAACGCGA
* * *
863 TAGTCAAATTCGCAACACAA
1 AAGTCAAATTCGCAACGCGA
*
883 AAGTCAATTTCGCAACGCGA
1 AAGTCAAATTCGCAACGCGA
* ** *
903 ATTTGT-AAA-TCATAACAC-A
1 A--AGTCAAATTCGCAACGCGA
*
922 GAATTCAAATTCGCAACGCGA
1 -AAGTCAAATTCGCAACGCGA
* * *
943 TAGTCAAATTTGCAACAG-AA
1 AAGTCAAATTCGCAAC-GCGA
* *
963 AAGTCAAATTCGCAACACAA
1 AAGTCAAATTCGCAACGCGA
983 AAGTCAAATTCGCAACGCGA
1 AAGTCAAATTCGCAACGCGA
* * * *
1003 TAG-CCAATTCACAACAC-A
1 AAGTCAAATTCGCAACGCGA
*
1021 AAGTCAAATTCGTAACGCGGA
1 AAGTCAAATTCGCAACGC-GA
** *
1042 ATTTCAAATTCGCAATGCGA
1 AAGTCAAATTCGCAACGCGA
1062 AA
1 AA
1064 CACAATATAA
Statistics
Matches: 149, Mismatches: 41, Indels: 22
0.70 0.19 0.10
Matches are distributed among these distances:
18 4 0.03
19 25 0.17
20 99 0.66
21 19 0.13
22 2 0.01
ACGTcount: A:0.42, C:0.22, G:0.15, T:0.21
Consensus pattern (20 bp):
AAGTCAAATTCGCAACGCGA
Found at i:896 original size:60 final size:60
Alignment explanation
Indices: 832--1061 Score: 202
Period size: 60 Copynumber: 3.9 Consensus size: 60
822 AATCTGTAAA
* * * *
832 TCGCAACACATAAGTCAAATTCGTAACGC-GATAGTCAAATTCGCAACACAAAAGTCAATT
1 TCGCAACACATAAGTCAAATTCGTAACACAGA-AGTCAAATTCGCAACGCGATAGTCAATT
* ** * *
892 TCGCAACGCGAATTTGT-AAA-TCATAACACAGAATTCAAATTCGCAACGCGATAGTCAAATT
1 TCGCAACAC--ATAAGTCAAATTCGTAACACAGAAGTCAAATTCGCAACGCGATAGTC-AATT
* * * * *
953 T-GCAACAGAAAAGTCAAATTCGCAACACAAAAGTCAAATTCGCAACGCGATAGCCAA-T
1 TCGCAACACATAAGTCAAATTCGTAACACAGAAGTCAAATTCGCAACGCGATAGTCAATT
* * * * *
1011 TCACAACACA-AAGTCAAATTCGTAACGCGGAATTTCAAATTCGCAATGCGA
1 TCGCAACACATAAGTCAAATTCGTAACACAGAA-GTCAAATTCGCAACGCGA
1062 AACACAATAT
Statistics
Matches: 135, Mismatches: 27, Indels: 17
0.75 0.15 0.09
Matches are distributed among these distances:
58 23 0.17
59 27 0.20
60 71 0.53
61 10 0.07
62 4 0.03
ACGTcount: A:0.41, C:0.23, G:0.15, T:0.21
Consensus pattern (60 bp):
TCGCAACACATAAGTCAAATTCGTAACACAGAAGTCAAATTCGCAACGCGATAGTCAATT
Found at i:910 original size:80 final size:80
Alignment explanation
Indices: 810--978 Score: 257
Period size: 80 Copynumber: 2.1 Consensus size: 80
800 GATTTTCCAG
* * *
810 ATTCGCAACGCGAATCTGTAAATCGCAACACATAAGTCAAATTCGTAACGCGATAGTCAAATTCG
1 ATTCGCAACGCGAATCTGTAAATCACAACACAGAAGTCAAATTCGCAACGCGATAGTCAAATTCG
875 CAACACAAAAGTCAA
66 CAACACAAAAGTCAA
* * * * *
890 TTTCGCAACGCGAATTTGTAAATCATAACACAGAATTCAAATTCGCAACGCGATAGTCAAATTTG
1 ATTCGCAACGCGAATCTGTAAATCACAACACAGAAGTCAAATTCGCAACGCGATAGTCAAATTCG
*
955 CAACAGAAAAGTCAA
66 CAACACAAAAGTCAA
970 ATTCGCAAC
1 ATTCGCAAC
979 ACAAAAGTCA
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (80 bp):
ATTCGCAACGCGAATCTGTAAATCACAACACAGAAGTCAAATTCGCAACGCGATAGTCAAATTCG
CAACACAAAAGTCAA
Found at i:1613 original size:20 final size:20
Alignment explanation
Indices: 1588--1643 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
1578 AAATCGCAAC
1588 GCGATTTTAATTTTCACGTT
1 GCGATTTTAATTTTCACGTT
* *
1608 GCGATTTTCATTTTCGCGTT
1 GCGATTTTAATTTTCACGTT
* * *
1628 GTGAATTTAAGTTTCA
1 GCGATTTTAATTTTCA
1644 GAAACTACTC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.20, C:0.14, G:0.18, T:0.48
Consensus pattern (20 bp):
GCGATTTTAATTTTCACGTT
Found at i:3625 original size:12 final size:12
Alignment explanation
Indices: 3608--3646 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
3598 TTTTTCGACA
*
3608 TTATTTATTTAT
1 TTATTTATTAAT
*
3620 TTATTTACTAAT
1 TTATTTATTAAT
*
3632 TTATGTATTAAT
1 TTATTTATTAAT
3644 TTA
1 TTA
3647 ATTTCAGCGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (12 bp):
TTATTTATTAAT
Found at i:5312 original size:68 final size:65
Alignment explanation
Indices: 5233--5389 Score: 201
Period size: 65 Copynumber: 2.4 Consensus size: 65
5223 AGGGTACACT
*
5233 TTTTTTGCTTGTTTAATTGAATTTTACATTAAAAGTTGATTT-GTTAA-TTGATGAGGAAATAAG
1 TTTTTTGCTTGTTTAATTG-A-TTT---GTAAAAGTTGATTTAGTTAATTTGATGAGGAAATAAG
5296 AATTA
61 AATTA
* * * *
5301 TTTTTTGCTTGTATAATTGATTTGTAAAAGTTGATTTATTTAATTTGATGTGTAAATAAGAATTA
1 TTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTAGTTAATTTGATGAGGAAATAAGAATTA
*
5366 TTTTTTGCTTGTTTAATTTATTTG
1 TTTTTTGCTTGTTTAATTGATTTG
5390 AAAGTCAAAT
Statistics
Matches: 80, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
63 13 0.16
64 4 0.05
65 41 0.51
66 3 0.04
67 1 0.01
68 18 0.22
ACGTcount: A:0.30, C:0.03, G:0.15, T:0.52
Consensus pattern (65 bp):
TTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTAGTTAATTTGATGAGGAAATAAGAATTA
Found at i:5780 original size:18 final size:18
Alignment explanation
Indices: 5757--5792 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
5747 AAGCCGGTTG
*
5757 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
5775 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
5793 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:7111 original size:19 final size:19
Alignment explanation
Indices: 7052--7161 Score: 123
Period size: 19 Copynumber: 5.6 Consensus size: 19
7042 CTAAAACCTA
* *
7052 TTGCGAAATT-AAATTCGTG
1 TTGCGAATTTGAAATTC-AG
* *
7071 TTGCGAATTCGAAAATCTAG
1 TTGCGAATTTGAAATTC-AG
*
7091 TTGCAAATTTGAAATTCAG
1 TTGCGAATTTGAAATTCAG
7110 TTGCGAATTTGAAATTCAG
1 TTGCGAATTTGAAATTCAG
*
7129 TTGCGAATTTGAAATTCCGCG
1 TTGCGAATTTGAAATT-C-AG
7150 TTGCGAATTTGA
1 TTGCGAATTTGA
7162 CTTTTGTGTT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
19 44 0.56
20 21 0.27
21 13 0.17
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (19 bp):
TTGCGAATTTGAAATTCAG
Found at i:7131 original size:38 final size:41
Alignment explanation
Indices: 7062--7161 Score: 127
Period size: 40 Copynumber: 2.5 Consensus size: 41
7052 TTGCGAAATT
* *
7062 AAATT-CGTGTTGCGAATTCGAAAATCTAGTTGCAAATTTG
1 AAATTCCGAGTTGCGAATTTGAAAATCTAGTTGCAAATTTG
* *
7102 AAATT-C-AGTTGCGAATTTGAAATTC-AGTTGCGAATTTG
1 AAATTCCGAGTTGCGAATTTGAAAATCTAGTTGCAAATTTG
*
7140 AAATTCCGCGTTGCGAATTTGA
1 AAATTCCGAGTTGCGAATTTGA
7162 CTTTTGTGTT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
38 17 0.32
39 17 0.32
40 19 0.36
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (41 bp):
AAATTCCGAGTTGCGAATTTGAAAATCTAGTTGCAAATTTG
Found at i:7174 original size:20 final size:20
Alignment explanation
Indices: 7109--7223 Score: 128
Period size: 20 Copynumber: 5.8 Consensus size: 20
7099 TTGAAATTCA
*
7109 GTTGCGAATTTGA-AATT-C
1 GTTGCGAATTTGACTATTGC
*
7127 AGTTGCGAATTTGA-AATTCCGC
1 -GTTGCGAATTTGACTATT--GC
* *
7149 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTATTGC
*
7169 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACTATTGC
7189 GTTGCGAATTTGACTATTGC
1 GTTGCGAATTTGACTATTGC
*
7209 ATTGCGAATTTGACT
1 GTTGCGAATTTGACT
7224 TATGTGTTGC
Statistics
Matches: 84, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
19 17 0.20
20 51 0.61
21 13 0.15
22 3 0.04
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.39
Consensus pattern (20 bp):
GTTGCGAATTTGACTATTGC
Found at i:7190 original size:40 final size:42
Alignment explanation
Indices: 7109--7223 Score: 141
Period size: 40 Copynumber: 2.8 Consensus size: 42
7099 TTGAAATTCA
* *
7109 GTTGCGAATTTGA-AATT-CAGTTGCGAATTTGA-AATTCCGC
1 GTTGCGAATTTGACTATTGC-GTTGCGAATTTGACTATTCCGC
* *
7149 GTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTA-T-CGC
1 GTTGCGAATTTGACTATTGCGTTGCGAATTTGACTATTCCGC
*
7189 GTTGCGAATTTGACTATTGCATTGCGAATTTGACT
1 GTTGCGAATTTGACTATTGCGTTGCGAATTTGACT
7224 TATGTGTTGC
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
40 48 0.74
41 16 0.25
42 1 0.02
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.39
Consensus pattern (42 bp):
GTTGCGAATTTGACTATTGCGTTGCGAATTTGACTATTCCGC
Found at i:7233 original size:20 final size:19
Alignment explanation
Indices: 7149--7235 Score: 104
Period size: 20 Copynumber: 4.4 Consensus size: 19
7139 GAAATTCCGC
*
7149 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGAC-TATGT
*
7169 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACTAT-GT
7189 GTTGCGAATTTGACTAT-T
1 GTTGCGAATTTGACTATGT
7207 GCATTGCGAATTTGACTTATGT
1 G--TTGCGAATTTGAC-TATGT
7229 GTTGCGA
1 GTTGCGA
7236 TTTATAAATT
Statistics
Matches: 59, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
18 1 0.02
19 2 0.03
20 51 0.86
21 3 0.05
22 2 0.03
ACGTcount: A:0.20, C:0.14, G:0.25, T:0.41
Consensus pattern (19 bp):
GTTGCGAATTTGACTATGT
Found at i:7252 original size:20 final size:20
Alignment explanation
Indices: 7229--7295 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
7219 TGACTTATGT
* *
7229 GTTGCGATTTATAAATTCGC
1 GTTGCGATTTACAGATTCGC
7249 GTTGCGATTTACAGATTCGC
1 GTTGCGATTTACAGATTCGC
7269 GTTGCGATTTACAGATTCGC
1 GTTGCGATTTACAGATTCGC
7289 GTTGCGA
1 GTTGCGA
7296 ATTTGGAAAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACAGATTCGC
Found at i:7254 original size:40 final size:39
Alignment explanation
Indices: 7169--7300 Score: 121
Period size: 40 Copynumber: 3.3 Consensus size: 39
7159 TGACTTTTGT
7169 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACT-ATT-GC
1 GTTGCGAATTTGACTATCGCGTTGCG-ATTT-A-TAATTCGC
* *
7209 ATTGCGAATTTGACTTAT-GTGTTGCGATTTATAAATTCGC
1 GTTGCGAATTTGAC-TATCGCGTTGCGATTTAT-AATTCGC
* *
7249 GTTGCG-ATTT-ACAGATTCGCGTTGCGATTTACAGATTCGC
1 GTTGCGAATTTGAC-TA-TCGCGTTGCGATTTATA-ATTCGC
7289 GTTGCGAATTTG
1 GTTGCGAATTTG
7301 GAAACTGGGT
Statistics
Matches: 76, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
37 1 0.01
38 4 0.05
39 13 0.17
40 51 0.67
41 7 0.09
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.39
Consensus pattern (39 bp):
GTTGCGAATTTGACTATCGCGTTGCGATTTATAATTCGC
Found at i:7274 original size:60 final size:61
Alignment explanation
Indices: 7109--7275 Score: 177
Period size: 60 Copynumber: 2.8 Consensus size: 61
7099 TTGAAATTCA
* * *
7109 GTTGCGAATTTGAAAT-TC-AGTTGCGAATTTGA-AATTCCGCGTTGCGAATTTGACTTTTGT
1 GTTGCGAATTT-AAATATCGCGTTGCGAATTTGACGATT-CGCGTTGCGAATTTGACTTATGT
* * * *
7169 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTATT-GCATTGCGAATTTGACTTATGT
1 GTTGCGAATTTAAATATCGCGTTGCGAATTTGACGATTCGCGTTGCGAATTTGACTTATGT
*
7229 GTTGCGATTTATAAAT-TCGCGTTGCG-ATTT-ACAGATTCGCGTTGCGA
1 GTTGCGAATT-TAAATATCGCGTTGCGAATTTGAC-GATTCGCGTTGCGA
7276 TTTACAGATT
Statistics
Matches: 90, Mismatches: 11, Indels: 12
0.80 0.10 0.11
Matches are distributed among these distances:
58 2 0.02
59 9 0.10
60 60 0.67
61 16 0.18
62 3 0.03
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.39
Consensus pattern (61 bp):
GTTGCGAATTTAAATATCGCGTTGCGAATTTGACGATTCGCGTTGCGAATTTGACTTATGT
Found at i:7526 original size:18 final size:18
Alignment explanation
Indices: 7494--7538 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
7484 AATTATTTAA
*
7494 AAAATTATTATTATTATTT
1 AAAATT-TTAATATTATTT
*
7513 AAAATTTTAATATTTTTT
1 AAAATTTTAATATTATTT
*
7531 AATATTTT
1 AAAATTTT
7539 CTATAAATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
AAAATTTTAATATTATTT
Found at i:7526 original size:21 final size:21
Alignment explanation
Indices: 7485--7526 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7475 TTGATAAAAA
*
7485 ATTATTTAAAAAATTATTATT
1 ATTATTTAAAAAATTAATATT
**
7506 ATTATTTAAAATTTTAATATT
1 ATTATTTAAAAAATTAATATT
7527 TTTTAATATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTATTTAAAAAATTAATATT
Found at i:7657 original size:18 final size:17
Alignment explanation
Indices: 7621--7659 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
7611 AAAAAAATTG
* *
7621 ATAAAATATTAATAATA
1 ATAAAATAATAAAAATA
7638 ATAAAATCAATAAAAATA
1 ATAAAAT-AATAAAAATA
7656 ATAA
1 ATAA
7660 TGATTTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (17 bp):
ATAAAATAATAAAAATA
Found at i:12983 original size:35 final size:35
Alignment explanation
Indices: 12862--12966 Score: 210
Period size: 35 Copynumber: 3.0 Consensus size: 35
12852 TGTTTTCAAC
12862 AATCTTCCCCTTTTTGATATAACAAAACATTTTAG
1 AATCTTCCCCTTTTTGATATAACAAAACATTTTAG
12897 AATCTTCCCCTTTTTGATATAACAAAACATTTTAG
1 AATCTTCCCCTTTTTGATATAACAAAACATTTTAG
12932 AATCTTCCCCTTTTTGATATAACAAAACATTTTAG
1 AATCTTCCCCTTTTTGATATAACAAAACATTTTAG
12967 TAATTTTAAG
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 70 1.00
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.40
Consensus pattern (35 bp):
AATCTTCCCCTTTTTGATATAACAAAACATTTTAG
Found at i:15155 original size:20 final size:20
Alignment explanation
Indices: 15118--15156 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15108 AGATTGAGTG
* * *
15118 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
15138 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
15157 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:15374 original size:20 final size:21
Alignment explanation
Indices: 15328--15388 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
15318 TTCCCCTGTG
15328 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
15351 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
15371 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
15389 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
22 3 0.08
23 13 0.36
ACGTcount: A:0.18, C:0.26, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:19814 original size:16 final size:17
Alignment explanation
Indices: 19795--19827 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
19785 TTTTTTCTTA
19795 AATTTC-GTTTTCTTTT
1 AATTTCAGTTTTCTTTT
19811 AATTTCAAGTTTTCTTT
1 AATTTC-AGTTTTCTTT
19828 ATTTTCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (17 bp):
AATTTCAGTTTTCTTTT
Found at i:19828 original size:17 final size:15
Alignment explanation
Indices: 19787--19837 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
19777 GTTCTTTTTT
*
19787 TTTTCTTAAATTTCG
1 TTTTCTTTAATTTCG
19802 TTTTCTTTTAATTTCAAG
1 TTTTC-TTTAATTTC--G
*
19820 TTTTCTTTATTTTC-
1 TTTTCTTTAATTTCG
19834 TTTT
1 TTTT
19838 AAAATGTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
14 4 0.13
15 5 0.16
16 8 0.26
17 8 0.26
18 6 0.19
ACGTcount: A:0.16, C:0.12, G:0.04, T:0.69
Consensus pattern (15 bp):
TTTTCTTTAATTTCG
Found at i:27728 original size:19 final size:19
Alignment explanation
Indices: 27704--27748 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
27694 TTCGTTTAAA
*
27704 TTTTTTGAAATTTTGGCTT
1 TTTTTTGAAATTTTGCCTT
***
27723 TTTTTTGTTTTTTTGCCTT
1 TTTTTTGAAATTTTGCCTT
27742 TTTTTTG
1 TTTTTTG
27749 CCTTTTTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.07, C:0.07, G:0.13, T:0.73
Consensus pattern (19 bp):
TTTTTTGAAATTTTGCCTT
Found at i:27744 original size:11 final size:11
Alignment explanation
Indices: 27714--27756 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
27704 TTTTTTGAAA
*
27714 TTTTGGCTTTT
1 TTTTGCCTTTT
27725 TTTTG---TTT
1 TTTTGCCTTTT
27733 TTTTGCCTTTT
1 TTTTGCCTTTT
27744 TTTTGCCTTTT
1 TTTTGCCTTTT
27755 TT
1 TT
27757 ATTTTATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 8 0.28
11 21 0.72
ACGTcount: A:0.00, C:0.12, G:0.12, T:0.77
Consensus pattern (11 bp):
TTTTGCCTTTT
Found at i:27754 original size:19 final size:19
Alignment explanation
Indices: 27714--27755 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
27704 TTTTTTGAAA
* **
27714 TTTTGGCTTTTTTTTGTTT
1 TTTTGCCTTTTTTTTGCCT
27733 TTTTGCCTTTTTTTTGCCT
1 TTTTGCCTTTTTTTTGCCT
27752 TTTT
1 TTTT
27756 TATTTTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.00, C:0.12, G:0.12, T:0.76
Consensus pattern (19 bp):
TTTTGCCTTTTTTTTGCCT
Found at i:46045 original size:32 final size:32
Alignment explanation
Indices: 46009--46087 Score: 95
Period size: 32 Copynumber: 2.5 Consensus size: 32
45999 TTCCATCGAC
*
46009 ACCACGCCCAGCTGCAAACTGATCCTGTCTGG
1 ACCACGCCCAGCTGCAAACTGATCATGTCTGG
* * **
46041 ACCACGCCAAGCTACAAGTTGATCATGTCTGG
1 ACCACGCCCAGCTGCAAACTGATCATGTCTGG
* *
46073 TCCACGCCCAACTGC
1 ACCACGCCCAGCTGC
46088 CTTGGAGGGG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.24, C:0.37, G:0.20, T:0.19
Consensus pattern (32 bp):
ACCACGCCCAGCTGCAAACTGATCATGTCTGG
Found at i:49117 original size:2 final size:2
Alignment explanation
Indices: 49107--49146 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
49097 CTTCTCTCAC
*
49107 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49147 CTTCTCTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52901 original size:12 final size:12
Alignment explanation
Indices: 52884--52908 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52874 ACCTTTCAGG
52884 CATTATTACAAT
1 CATTATTACAAT
52896 CATTATTACAAT
1 CATTATTACAAT
52908 C
1 C
52909 TTCGAGGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (12 bp):
CATTATTACAAT
Found at i:54284 original size:22 final size:23
Alignment explanation
Indices: 54265--54307 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
54255 GCAATATAGT
*
54265 TCATATTTTGAATA-TATATATA
1 TCATATTTTGAAAAGTATATATA
*
54287 TTATATTTTGAAAAGTATATA
1 TCATATTTTGAAAAGTATATA
54308 ATTTTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (23 bp):
TCATATTTTGAAAAGTATATATA
Found at i:54392 original size:14 final size:15
Alignment explanation
Indices: 54357--54396 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
54347 ATATATACGA
*
54357 AAATATATAGTTTTG
1 AAATATATACTTTTG
*
54372 AAATATATACTTTTT
1 AAATATATACTTTTG
54387 AATATATATA
1 AA-ATATATA
54397 TATATATATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (15 bp):
AAATATATACTTTTG
Found at i:54425 original size:15 final size:15
Alignment explanation
Indices: 54355--54443 Score: 58
Period size: 16 Copynumber: 5.8 Consensus size: 15
54345 ATATATATAC
54355 GAAAATATATAGTTTT
1 GAAAATATATA-TTTT
54371 G-AAATATATACTTTT
1 GAAAATATATA-TTTT
* * *
54386 TAATATATATA-TAT
1 GAAAATATATATTTT
*
54400 -ATATATGATATATTTT
1 GA-AAAT-ATATATTTT
*
54416 GAAAATATATATATCT
1 GAAAATATATAT-TTT
*
54432 AAAAATATATAT
1 GAAAATATATAT
54444 AGTTTTTAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
13 1 0.02
14 6 0.10
15 24 0.41
16 27 0.46
17 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (15 bp):
GAAAATATATATTTT
Found at i:56065 original size:14 final size:14
Alignment explanation
Indices: 56020--56059 Score: 62
Period size: 15 Copynumber: 2.8 Consensus size: 14
56010 TTAAATATCA
*
56020 TTTTTATTAATATT
1 TTTTTATTATTATT
56034 TGTTTTATTATTATT
1 T-TTTTATTATTATT
56049 TTTTTATTATT
1 TTTTTATTATT
56060 TCTTTTCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.75
Consensus pattern (14 bp):
TTTTTATTATTATT
Found at i:56972 original size:9 final size:9
Alignment explanation
Indices: 56931--57001 Score: 54
Period size: 9 Copynumber: 7.6 Consensus size: 9
56921 AAAACACACG
*
56931 TCTTCTTCT
1 TCTTCTTTT
56940 TCTTTCTTTTT
1 TC-TTC-TTTT
* *
56951 TCTTGTTTC
1 TCTTCTTTT
56960 TCTTCTTTT
1 TCTTCTTTT
56969 TCTTCTTTAT
1 TCTTCTTT-T
*
56979 ATCTT-TCTT
1 -TCTTCTTTT
*
56988 TCTTCTTCT
1 TCTTCTTTT
56997 TCTTC
1 TCTTC
57002 ATCATCATTA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
8 4 0.08
9 28 0.57
10 8 0.16
11 9 0.18
ACGTcount: A:0.03, C:0.25, G:0.01, T:0.70
Consensus pattern (9 bp):
TCTTCTTTT
Found at i:58941 original size:28 final size:27
Alignment explanation
Indices: 58910--58965 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 27
58900 GTCACAAGAG
*
58910 AAATAAATAAAAATTAAGAAAAATATTA
1 AAATAAACAAAAATTAAG-AAAATATTA
*
58938 AAATAAACAATAATTAAGAAAATATTA
1 AAATAAACAAAAATTAAGAAAATATTA
58965 A
1 A
58966 TGTCTAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 10 0.38
28 16 0.62
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.25
Consensus pattern (27 bp):
AAATAAACAAAAATTAAGAAAATATTA
Found at i:60746 original size:124 final size:124
Alignment explanation
Indices: 60523--60749 Score: 404
Period size: 124 Copynumber: 1.8 Consensus size: 124
60513 GTCGATCCGT
*
60523 TGGGCACGATTTCCTTCGTAGTGAAGTTGAAATCGTGGATGGCTCCTTCGTTGTGAAGTTGAGCT
1 TGGGCACGATTTCCTTCGTAGCGAAGTTGAAATCGTGGATGGCTCCTTCGTTGTGAAGTTGAGCT
*
60588 TTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTAGAGATGGATACTGCTTG
66 TTGAATTGGATATCCTTCGTTGTGAAGTTAAAATCCAATCTAGAGATGGATACTGCTTG
60647 TGGGCACGATATT-CTTCGTCA-CGAAGTTGAAATCGTGGATGGCTCCTTCGTTGTGAAGTTGAG
1 TGGGCACGAT-TTCCTTCGT-AGCGAAGTTGAAATCGTGGATGGCTCCTTCGTTGTGAAGTTGAG
60710 CTTTGAATTGGATATCCTTCGTTGTGAAGTTAAAATCCAA
64 CTTTGAATTGGATATCCTTCGTTGTGAAGTTAAAATCCAA
60750 GGGTTGTTTC
Statistics
Matches: 99, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
124 96 0.97
125 3 0.03
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.34
Consensus pattern (124 bp):
TGGGCACGATTTCCTTCGTAGCGAAGTTGAAATCGTGGATGGCTCCTTCGTTGTGAAGTTGAGCT
TTGAATTGGATATCCTTCGTTGTGAAGTTAAAATCCAATCTAGAGATGGATACTGCTTG
Found at i:60851 original size:65 final size:64
Alignment explanation
Indices: 60709--60934 Score: 248
Period size: 65 Copynumber: 3.7 Consensus size: 64
60699 GTGAAGTTGA
* * *
60709 GCTTTGAATTGGATATCCTTCGTTGTGAAGTTAAAATCCAA----GGGT-TGTTTCACCAAATTG
1 GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTAAAATCCAATCTTGAGTATATTTCA-CAAATTG
* ** *
60769 GTTTTGAGTTGGATATCCTTCGTCATGAAGTTAAAATCCAATCTTGAGTAAATTTCACAAAATTG
1 GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTAAAATCCAATCTTGAGTATATTTCAC-AAATTG
60834 GCTTTGAGTTGGATATCCTTCGTTGTGAAGTT-AAATCC-ATCTTGA--ATATTGT------TTG
1 GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTAAAATCCAATCTTGAGTATATT-TCACAAATTG
60889 GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTAAAAATCCAATCTT
1 GCTTTGAGTTGGATATCCTTCGTTGTGAAGTT-AAAATCCAATCTT
60935 TTGTAAGTTT
Statistics
Matches: 145, Mismatches: 11, Indels: 22
0.81 0.06 0.12
Matches are distributed among these distances:
55 35 0.24
57 6 0.04
58 5 0.03
60 37 0.26
61 4 0.03
62 1 0.01
63 7 0.05
64 10 0.07
65 40 0.28
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (64 bp):
GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTAAAATCCAATCTTGAGTATATTTCACAAATTG
Found at i:61672 original size:32 final size:32
Alignment explanation
Indices: 61597--61684 Score: 122
Period size: 32 Copynumber: 2.8 Consensus size: 32
61587 TTCACATCAG
* *
61597 GATGTTGAATCCCCAAAAATGCCCCAATATTC
1 GATGTTGAATCTCCAAAAATGCCCCAACATTC
* *
61629 GATGTTGAATCTCCAAAAATGCTCCAACATTT
1 GATGTTGAATCTCCAAAAATGCCCCAACATTC
* *
61661 GATGTTGAATCTTCAAAGATGCCC
1 GATGTTGAATCTCCAAAAATGCCC
61685 TCCATTGTTC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (32 bp):
GATGTTGAATCTCCAAAAATGCCCCAACATTC
Found at i:62799 original size:20 final size:21
Alignment explanation
Indices: 62757--62803 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
62747 TTATTTTCTC
* *
62757 TTTGCTTCTTTTCTTTTGATT
1 TTTGCTTCTTTGCTTTTCATT
62778 TTTG-TTCTTTGCTTTTC-TT
1 TTTGCTTCTTTGCTTTTCATT
62797 TTTGCTT
1 TTTGCTT
62804 TGATTTGATC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 6 0.26
20 13 0.57
21 4 0.17
ACGTcount: A:0.02, C:0.15, G:0.11, T:0.72
Consensus pattern (21 bp):
TTTGCTTCTTTGCTTTTCATT
Found at i:63502 original size:65 final size:63
Alignment explanation
Indices: 63383--63593 Score: 221
Period size: 65 Copynumber: 3.3 Consensus size: 63
63373 TTTTTCTGAG
* * * *
63383 TGATGCACCGATGCACCAATCCATGCATCGATGCAC-CATGAATTAAATTG-AACATCGAATGCA
1 TGATGCATCGATGCA-CAA-CCATGCATCGATGCACTCAGGCATT--TTTGAAACATCGAATGCA
63446 TT
62 TT
* * *
63448 TCATGCATCGATGCACATACCATGCATCGATGCACTGAGG-ATTTTATGAAAACATCAAATGCAT
1 TGATGCATCGATGCACA-ACCATGCATCGATGCACTCAGGCATTTT-TG-AAACATCGAATGCAT
63512 T
63 T
* * * *
63513 TGATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTTGAAACATTGAATGCACT
1 TGATGCATCGATGCA-CAACCATGCATCGATGCACTCAGGC-ATTTTTGAAACATCGAATGCATT
63578 TGATGCATCGATGCAC
1 TGATGCATCGATGCAC
63594 TCTTAGTGCA
Statistics
Matches: 125, Mismatches: 13, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
62 1 0.01
63 2 0.02
64 22 0.18
65 91 0.73
66 4 0.03
67 5 0.04
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (63 bp):
TGATGCATCGATGCACAACCATGCATCGATGCACTCAGGCATTTTTGAAACATCGAATGCATT
Found at i:65566 original size:21 final size:21
Alignment explanation
Indices: 65541--65617 Score: 136
Period size: 21 Copynumber: 3.7 Consensus size: 21
65531 TACACAACAA
*
65541 GATGCATCAATGCAAAGCCTT
1 GATGCATCGATGCAAAGCCTT
65562 GATGCATCGATGCAAAGCCTT
1 GATGCATCGATGCAAAGCCTT
*
65583 GATGCATCGATGCACAGCCTT
1 GATGCATCGATGCAAAGCCTT
65604 GATGCATCGATGCA
1 GATGCATCGATGCA
65618 CAGAAGGATG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (21 bp):
GATGCATCGATGCAAAGCCTT
Found at i:65618 original size:21 final size:21
Alignment explanation
Indices: 65541--65638 Score: 135
Period size: 21 Copynumber: 4.7 Consensus size: 21
65531 TACACAACAA
* *
65541 GATGCATCAATGCAAAGCCTT
1 GATGCATCGATGCACAGCCTT
*
65562 GATGCATCGATGCAAAGCCTT
1 GATGCATCGATGCACAGCCTT
65583 GATGCATCGATGCACAGCCTT
1 GATGCATCGATGCACAGCCTT
***
65604 GATGCATCGATGCACAG-AAG
1 GATGCATCGATGCACAGCCTT
65624 GATGCATCGATGCAC
1 GATGCATCGATGCAC
65639 TAATTGCATT
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
20 15 0.21
21 57 0.79
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.21
Consensus pattern (21 bp):
GATGCATCGATGCACAGCCTT
Found at i:65711 original size:22 final size:21
Alignment explanation
Indices: 65659--65715 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
65649 CGGTGTTTGA
65659 GTGCATGGATGCAC-TGCATG
1 GTGCATGGATGCACTTGCATG
* *
65679 ATGCATCGATGCACTAGTGCA-G
1 GTGCATGGATGCACT--TGCATG
65701 GTGCATGGATGCACT
1 GTGCATGGATGCACT
65716 GCAGGGATGC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 12 0.40
22 14 0.47
23 4 0.13
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.25
Consensus pattern (21 bp):
GTGCATGGATGCACTTGCATG
Found at i:65850 original size:29 final size:29
Alignment explanation
Indices: 65829--65886 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
65819 AAACTTTGAA
65829 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
65858 TAAATTCAATTCAAGTCCAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
65887 TGCCTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.41
30 14 0.52
31 2 0.07
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:65876 original size:30 final size:30
Alignment explanation
Indices: 65829--65888 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
65819 AAACTTTGAA
65829 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
65858 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
65889 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:67176 original size:21 final size:23
Alignment explanation
Indices: 67145--67186 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
67135 TTGGCTTTCA
*
67145 AAATCTATTTT-GTTTTTAAAAG
1 AAATCTATTTTCGATTTTAAAAG
67167 AAATC-ATTTTCGATTTTAAA
1 AAATCTATTTTCGATTTTAAA
67187 TTTTGAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (23 bp):
AAATCTATTTTCGATTTTAAAAG
Done.